alioth/nixpkgs
3
0
Fork 0
forked from mirrors/nixpkgs
Code Releases Activity

Merge pull request #44250 from jbedo/strelka

Browse source 
strelka: init 2.9.5
This commit is contained in:
Joachim F 2018-08-20 06:24:15 +00:00 committed by GitHub
parent 5a3f063ebc 27960b6acf
commit 6755ab8b34
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
2 changed files with 39 additions and 0 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

37
pkgs/applications/science/biology/strelka/default.nix Normal file
View file

@ -0,0 +1,37 @@
{stdenv, fetchFromGitHub, cmake, zlib, python2}:
stdenv.mkDerivation rec {
name = "strelka-${version}";
version = "2.9.5";
src = fetchFromGitHub {
owner = "Illumina";
repo = "strelka";
rev = "v${version}";
sha256 = "0x4a6nkx1jnyag9svghsdjz1fz6q7qx5pn77wphdfnk81f9yspf8";
};
buildInputs = [ cmake zlib python2 ];
preConfigure = ''
sed -i 's|/usr/bin/env python|${python2}/bin/python|' src/python/lib/makeRunScript.py
patchShebangs .
'';
postFixup = ''
pushd $out/lib/python/pyflow
sed -i 's|/bin/bash|${stdenv.shell}|' pyflowTaskWrapper.py
rm pyflowTaskWrapper.pyc
echo "import pyflowTaskWrapper" | python2
popd
'';
meta = with stdenv.lib; {
description = "Germline and small variant caller";
license = licenses.gpl3;
homepage = https://github.com/Illumina/strelka;
maintainers = with maintainers; [ jbedo ];
platforms = [ "x86_64-linux" ];
};
}

2
pkgs/top-level/all-packages.nix
View file

@ -20547,6 +20547,8 @@ with pkgs;
star = callPackage ../applications/science/biology/star { };
strelka = callPackage ../applications/science/biology/strelka { };
varscan = callPackage ../applications/science/biology/varscan { };
hmmer = callPackage ../applications/science/biology/hmmer { };